Origin IGS: tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagcccctctgactacgaggggctgcacgaacgctatgcccatctgctggacaagtccgcactgcaagccactttcagccgtgaagaggatataaggaaagaactctccacgctctttgagggaatgatgcggacactttacaaggtggagggggcacagttccgcattgagattctggagacgcctaaa Mask Tandem Repeat Region ================================================ tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Find is-nt database================================================ Query_seq: PI1638:PI1639|PI1638:PI1639:conserved hypothetical protein:conserved hypothetical protein:->->:1556674..1556864 191 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1638:PI1639|PI1638:PI1639:conserved hypothetical protein:conserved hypothetical protein:->->:1556674..1556864 191 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1638:PI1639|PI1638:PI1639:conserved hypothetical protein:conserved hypothetical protein:->->:1556674..1556864 191 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 62 End: 154 ............................................................. M I P S K S V E S S F L I S S S R L K V A C S A D L S S R W A ..................................... Protein_Len: 53 Strand: + Start: 31 End: 189 .............................. M C P L H L V K C P H H S L K E R G E F F P Y I L F T A E S G L Q C G L V Q Q M G I A F V Q P L V V R G A .. Protein_Len: 56 Strand: - Start: 1 End: 168 K P T E L I E I R F Q A G E V K Y L T R M M G E F L T S L E K R I D E E R S F T A Q L A S K D L L H A Y R E H M ....................... tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1638:PI1639|PI1638:PI1639:conserved hypothetical protein:conserved hypothetical protein:->->:1556674..1556864 191 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: pint_PI1638_PI1639|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1556674,1556864]|191 HSP 1 e-value: 1.0E-104 bit: 379.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca tttaggcgtctccagaatctcaatgcggaactgtgccccctccaccttgtaaagtgtccgcatcattccctcaaagagcgtggagagttctttccttatatcctcttcacggctgaaagtggcttgcagtgcggacttgtccagcagatgggcatagcgttcgtgcagcccctcgtagtcagaggggctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGGCGUCUCCAGAAUCUCAAUGCGGAACUGUGCCCCCUCCACCUUGUAAAGUGUCCGCAUCAUUCCCUCAAAGAGCGUGGAGAGUUCUUUCCUUAUAUCCUCUUCACGGCUGAAAGUGGCUUGCAGUGCGGACUUGUCCAGCAGAUGGGCAUAGCGUUCGUGCAGCCCCUCGUAGUCAGAGGGGCUCA ....((.....))...........(((((.((((((((.................((((((((((..((((...((..(((((((((...............))))))))).))...)).))..))..)))))))).((.....))...))))))))..)))))..((((((((.......)))))))).. (-64.16) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGCCCCUCUGACUACGAGGGGCUGCACGAACGCUAUGCCCAUCUGCUGGACAAGUCCGCACUGCAAGCCACUUUCAGCCGUGAAGAGGAUAUAAGGAAAGAACUCUCCACGCUCUUUGAGGGAAUGAUGCGGACACUUUACAAGGUGGAGGGGGCACAGUUCCGCAUUGAGAUUCUGGAGACGCCUAAA ..((((((((.......))))))))((..((((....(((((.((..((.((...(((((((...((..((.(((..((.((((.((((...............)))).))))..))..)))))..)).)))))))...))....))..))..)))))..)))).))...........(....)....... (-65.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 430 168 122 70 22 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 393 158 111 177 127 pint:PI1383|5end_biopolymer_transport_protein_tolQ_related_1304121..1304351_POSITIVE 386 189 143 231 178 pint:PI1889|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-(pentape_ptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_1831411..1831641_POSITIVE 380 170 123 78 26 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 378 145 103 55 2 pint:PI1444|5end_protease_ClpB_1365472..1365702_POSITIVE 373 146 103 60 14 pint:PI0642|5end_thioredoxin_family_protein_584672..584902_POSITIVE 371 50 3 58 4 pint:PI1826|5end_ATP-dependent_DNA_helicase_1765650..1765880_POSITIVE 369 188 142 228 158 pint:PI1157|5end_hypothetical_protein_1081704..1081934_POSITIVE 368 168 121 193 151 pint:PI0737|5end_hypothetical_protein_671182..671412_POSITIVE 366 167 122 186 123 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 364 169 121 189 117 pint:PI1660|5end_hypothetical_protein_1574659..1574889_POSITIVE 360 188 141 215 165 pint:PI0442|5end_50S_ribosomal_protein_L1_411644..411874_POSITIVE 359 180 136 60 4 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 359 169 121 168 114 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 359 169 121 65 11 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 359 168 123 98 52 pint:PI0587|5end_conserved_hypothetical_protein_534416..534646_POSITIVE 359 189 143 191 143 pint:PI0224|5end_conserved_hypothetical_protein_220541..220771_POSITIVE 358 166 123 80 32 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 357 158 112 93 41 pint:PI2158|5end_glycosyl_transferase,_group_2_family_protein_2104392..2104622_POSITIVE 357 189 145 92 49 pint:PI1908|5end_transcriptional_regulator,_AraC_family_1852261..1852491_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 441 190 142 137 74 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 430 168 122 65 17 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 393 159 111 95 35 pint:PI2041|3end_conserved_hypothetical_protein_1994660..1994810_POSITIVE 393 158 111 113 63 pint:PI1382|3end_hypothetical_protein_1304137..1304287_POSITIVE 381 145 103 149 105 pint:PI1512|3end_hypothetical_protein_1429893..1430043_POSITIVE 380 170 123 88 36 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 372 170 121 126 54 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 363 150 108 150 94 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 358 166 123 64 16 pint:PI2111|3end_conserved_hypothetical_protein_2063258..2063408_POSITIVE 357 158 112 78 26 pint:PI2157|3end_xanthosine_triphosphate_pyrophosphatase,_HAM1_family_2104457..2104607_POSITIVE 357 160 112 148 95 pint:PI1662|3end_hypothetical_protein_1577241..1577391_POSITIVE 354 169 128 116 60 pint:PI0410|3end_glutamyl-tRNA_synthetase_(glutamate--tRNA_ligase)_377490..377640_POSITIVE 353 160 112 148 95 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 348 145 109 54 10 pint:PI1479|3end_xanthine_phosphoribosyltransferase_1402747..1402897_POSITIVE 347 167 121 148 93 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 346 143 102 151 102 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 346 168 121 96 45 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 345 169 125 68 15 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 343 166 123 137 90 pint:PI2098|3end_hypothetical_protein_2052473..2052623_POSITIVE 342 189 141 90 38 pint:PI0199|3end_phosphate_acetyltransferase_190923..191073_POSITIVE